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NEWS
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CHANGES IN VERSION 1.16.0
-------------------------
o Bioconductor 3.18 release
CHANGES IN VERSION 1.14.0
-------------------------
o Bioconductor 3.17 release
CHANGES IN VERSION 1.12.0
-------------------------
o Bioconductor 3.16 release
CHANGES IN VERSION 1.10.0
-------------------------
o Bioconductor 3.15 release
CHANGES IN VERSION 1.8.1
-------------------------
o added grid to Imports
o fixed citation
o updated DOI
CHANGES IN VERSION 1.8.0
-------------------------
o Bioconductor 3.14 release
CHANGES IN VERSION 1.6.0
-------------------------
o Bioconductor 3.13 release
CHANGES IN VERSION 1.4.0
-------------------------
o Bioconductor 3.12 release
CHANGES IN VERSION 1.2.2
-------------------------
o skipped Python-dependent tests on i386 systems (64-bit version of
Python is required)
CHANGES IN VERSION 1.2.0
-------------------------
o added blue background to IDR distribution histograms
o updated roxygen2 version to 7.1.0
o added unit tests
CHANGES IN VERSION 1.0.4
-------------------------
o changed max_gap default value from 0 to -1 to conform with convention
o updated reference to IDR2D publication
CHANGES IN VERSION 1.0.3
-------------------------
o added option to disable jitter
o added min_value and max_value parameters to estimate_idr2d_hic
o fix block size display for draw_hic_contact_map
CHANGES IN VERSION 1.0.2
-------------------------
o added parser for HiC-Pro contact maps (.matrix and .bed files)
o added function to visualize contact maps, showing only reproducible blocks
CHANGES IN VERSION 1.0.1
-------------------------
o fixed alpha level in rank and value scatterplots
o bold font face for axis and legend titles
CHANGES IN VERSION 1.0.0
-------------------------
o added HiC code example
o added summary statistics to IDR1D, IDR2D, IDR2D HiC results
o added summary calls to vignettes
o added alpha parameter to control transparency
CHANGES IN VERSION 0.99.7
-------------------------
o refactored HiC code
CHANGES IN VERSION 0.99.6
-------------------------
o added optional log scale axes to plotting functions
o added error handling
o adjusted log messages
o added log_idr argument
o added min value / max value filtering
o mentioned typical HiC resolutions
CHANGES IN VERSION 0.99.5
-------------------------
o fixed minor code formatting and function documentation issues
o changed function names from lower camel case to snake case
o updated reference in vignettes
o replaced dots in variable names with underscores
o added HiC functionality
CHANGES IN VERSION 0.99.4
-------------------------
o fixed issue with non-standard column names
o added examples to function documentation
CHANGES IN VERSION 0.99.3
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o added max.points.shown parameter
CHANGES IN VERSION 0.99.2
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o added consistent ticks and limits to IDR plot functions
o updated function documentation
CHANGES IN VERSION 0.99.1
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o added reference to Li et al. paper
o added diagnostics plots
o changed rank order
o added IDR1D functionality
o fixed local / global IDR issue
CHANGES IN VERSION 0.99.0
-------------------------
o initial release